cdmlib.git
8 years agorevert chamges in MatchMode
Katja Luther [Thu, 19 Nov 2015 09:43:51 +0000 (10:43 +0100)]
revert chamges in MatchMode

8 years agoFix typo
Patrick Plitzner [Wed, 18 Nov 2015 14:10:23 +0000 (15:10 +0100)]
Fix typo

8 years agoExtended test for specimens associations
Patrick Plitzner [Wed, 18 Nov 2015 14:05:08 +0000 (15:05 +0100)]
Extended test for specimens associations

8 years agoRemove unused parameters
Patrick Plitzner [Wed, 18 Nov 2015 14:04:58 +0000 (15:04 +0100)]
Remove unused parameters

8 years agoAdd test for all possible specimen associations
Patrick Plitzner [Wed, 18 Nov 2015 11:24:45 +0000 (12:24 +0100)]
Add test for all possible specimen associations

8 years ago#4313 relationship type as additinal filter option for TaxonNodeAgentRelation services
Andreas Kohlbecker [Wed, 18 Nov 2015 09:55:18 +0000 (10:55 +0100)]
#4313 relationship  type as additinal filter option for TaxonNodeAgentRelation services

8 years agoAdd new service method listDerminationEvents to occurrence service which
Patrick Plitzner [Tue, 17 Nov 2015 15:32:20 +0000 (16:32 +0100)]
Add new service method listDerminationEvents to occurrence service which
lists all determination events that contain the given specimen

8 years agoCheck for names and synonymy when checking specimen determinations
Patrick Plitzner [Tue, 17 Nov 2015 14:29:30 +0000 (15:29 +0100)]
Check for names and synonymy when checking specimen determinations

8 years agoAdd java doc
Patrick Plitzner [Tue, 17 Nov 2015 14:28:54 +0000 (15:28 +0100)]
Add java doc

8 years agoClean up BeanInitNode embeddable issues #5383
Andreas Müller [Tue, 17 Nov 2015 15:09:18 +0000 (16:09 +0100)]
Clean up BeanInitNode embeddable issues   #5383

8 years agoFix bug for embeddable classes in AdvancedBeanInitializer #5383
Andreas Müller [Tue, 17 Nov 2015 14:52:35 +0000 (15:52 +0100)]
Fix bug for embeddable classes in AdvancedBeanInitializer #5383

8 years ago#4313 implementing full stack of methods to expose TaxonNodeAgentRelations throught...
Andreas Kohlbecker [Tue, 17 Nov 2015 13:58:59 +0000 (14:58 +0100)]
#4313 implementing full stack of methods to expose TaxonNodeAgentRelations throught the AgentController with filter options

8 years agofixing #4878
Katja Luther [Tue, 17 Nov 2015 13:46:25 +0000 (14:46 +0100)]
fixing #4878

8 years agoFix associated specimen retrieval for name determination
Patrick Plitzner [Tue, 17 Nov 2015 12:29:10 +0000 (13:29 +0100)]
Fix associated specimen retrieval for name determination
 - added test

8 years agoFix copy&paste error
Patrick Plitzner [Tue, 17 Nov 2015 11:55:53 +0000 (12:55 +0100)]
Fix copy&paste error

8 years agoFix failing tests
Patrick Plitzner [Tue, 17 Nov 2015 11:35:42 +0000 (12:35 +0100)]
Fix failing tests
 - adapted to new return type

8 years agoExtend service methods to retrieve specimens that are determiined as a
Patrick Plitzner [Tue, 17 Nov 2015 10:47:24 +0000 (11:47 +0100)]
Extend service methods to retrieve specimens that are determiined as a
taxon name

8 years agoWhen retrieving associated specimens retrieve all
Patrick Plitzner [Tue, 17 Nov 2015 09:50:05 +0000 (10:50 +0100)]
When retrieving associated specimens retrieve all
IndividualsAssocations, TypeDesignation, Determinations

8 years agoAdd javadoc
Patrick Plitzner [Tue, 17 Nov 2015 09:48:21 +0000 (10:48 +0100)]
Add javadoc

8 years agoRemove failing legacy test
Patrick Plitzner [Mon, 16 Nov 2015 15:42:40 +0000 (16:42 +0100)]
Remove failing legacy test

8 years agoRefactored import return type from boolean to ImportResult
Patrick Plitzner [Wed, 11 Nov 2015 17:37:33 +0000 (18:37 +0100)]
Refactored import return type from boolean to ImportResult

8 years agoMove import report to import state super class
Patrick Plitzner [Wed, 11 Nov 2015 17:14:14 +0000 (18:14 +0100)]
Move import report to import state super class

8 years ago#4313 introducing AgentPortalController
Andreas Kohlbecker [Mon, 16 Nov 2015 13:59:50 +0000 (14:59 +0100)]
#4313 introducing AgentPortalController

8 years ago#4313 implementing full stack of methods to expose TaxonNodeAgentRelations via remote...
Andreas Kohlbecker [Fri, 13 Nov 2015 19:57:11 +0000 (20:57 +0100)]
#4313 implementing full stack of methods to expose TaxonNodeAgentRelations via remote controllers

8 years agousing long value for count in pager & easier access to utilty method
Andreas Kohlbecker [Fri, 13 Nov 2015 19:55:56 +0000 (20:55 +0100)]
using long value for count in pager & easier access to utilty method

8 years agominor
Katja Luther [Mon, 16 Nov 2015 12:25:49 +0000 (13:25 +0100)]
minor

8 years agofix merge description into another description
Katja Luther [Mon, 16 Nov 2015 12:23:30 +0000 (13:23 +0100)]
fix merge description into another description

8 years ago#2273 removing HACK: hardcoded distribution status colors for cyprus a no longer...
Andreas Kohlbecker [Thu, 12 Nov 2015 14:16:58 +0000 (15:16 +0100)]
#2273 removing HACK: hardcoded distribution status colors for cyprus a no longer needed

8 years agoremoving obsoltete version definition in submodule pom.xml
Andreas Kohlbecker [Thu, 5 Nov 2015 09:17:07 +0000 (10:17 +0100)]
removing obsoltete version definition in submodule pom.xml

8 years agoAdd orphanRemoval to SingleReadAlignment set of Sequence #5200
Patrick Plitzner [Wed, 11 Nov 2015 09:38:44 +0000 (10:38 +0100)]
Add orphanRemoval to SingleReadAlignment set of Sequence #5200

8 years agoAdd UUID delete method to occurrence service #5200
Patrick Plitzner [Tue, 10 Nov 2015 11:33:36 +0000 (12:33 +0100)]
Add UUID delete method to occurrence service #5200

8 years agofixing #5303
Katja Luther [Tue, 10 Nov 2015 11:34:37 +0000 (12:34 +0100)]
fixing #5303

8 years agofixing #5303
Katja Luther [Tue, 10 Nov 2015 11:30:09 +0000 (12:30 +0100)]
fixing #5303

8 years agoFix sequence and single read deletion #5200
Patrick Plitzner [Tue, 10 Nov 2015 10:50:43 +0000 (11:50 +0100)]
Fix sequence and single read deletion #5200
 - adapted tests

8 years agoAdd test for deleting SingleRead that is attached to multpile seuqences
Patrick Plitzner [Tue, 10 Nov 2015 07:06:12 +0000 (08:06 +0100)]
Add test for deleting SingleRead that is attached to multpile seuqences
#5200

8 years agoSet singleRead to null when removing SingleReadAlignment from sequence
Patrick Plitzner [Mon, 9 Nov 2015 16:54:10 +0000 (17:54 +0100)]
Set singleRead to null when removing SingleReadAlignment from sequence
to avoid "object would be re-saved" #5200

8 years agoadded DAO for SingleReads #5200
Patrick Plitzner [Mon, 9 Nov 2015 16:13:50 +0000 (17:13 +0100)]
added DAO for SingleReads #5200

8 years agoAdded test for taxon (name) <-> specimen association
Patrick Plitzner [Mon, 9 Nov 2015 07:29:21 +0000 (08:29 +0100)]
Added test for taxon (name) <-> specimen association

8 years agoRevert "accept the change from a number to null in TimePeriod fields #5319"
k.luther [Tue, 10 Nov 2015 08:41:34 +0000 (09:41 +0100)]
Revert "accept the change from a number to null in TimePeriod fields #5319"

This reverts commit a3960fa7c279f2aa9fafbefde098c529e269d382.

8 years agoclean up csvNameExport
Katja Luther [Mon, 9 Nov 2015 11:22:22 +0000 (12:22 +0100)]
clean up csvNameExport

8 years agofixing cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/config/FeatureNode...
Katja Luther [Thu, 5 Nov 2015 13:55:29 +0000 (14:55 +0100)]
fixing  cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/config/FeatureNodeDeletionConfigurator.java

8 years agofix #5341 and fixing deletion of specimen
Katja Luther [Thu, 5 Nov 2015 11:09:23 +0000 (12:09 +0100)]
fix #5341 and fixing deletion of specimen

8 years agonew nodeDeletionConfiguator to fit for taxonnode and feature node deletion
Katja Luther [Tue, 3 Nov 2015 10:40:00 +0000 (11:40 +0100)]
new nodeDeletionConfiguator to fit for taxonnode and feature node deletion

8 years agoEvaluate publish flag in portal controller
Patrick Plitzner [Tue, 3 Nov 2015 10:59:01 +0000 (11:59 +0100)]
Evaluate publish flag in portal controller

8 years agoReturn type designations with associated taxa
Patrick Plitzner [Tue, 3 Nov 2015 10:09:14 +0000 (11:09 +0100)]
Return type designations with associated taxa

8 years agoFix return type
Patrick Plitzner [Tue, 3 Nov 2015 10:07:35 +0000 (11:07 +0100)]
Fix return type

8 years ago #5318
Katja Luther [Mon, 2 Nov 2015 12:54:01 +0000 (13:54 +0100)]
 #5318

8 years ago#5297 Move monitor thread api to super interface, Implement monitor feedback timeout
Cherian Mathew [Fri, 30 Oct 2015 09:15:12 +0000 (10:15 +0100)]
#5297 Move monitor thread api to super interface, Implement monitor feedback timeout

#5297 Add monitor feedback timeout, Cleanup code

8 years agoAdd datasource for unit tests to launch configuration
Cherian Mathew [Fri, 30 Oct 2015 09:16:35 +0000 (10:16 +0100)]
Add datasource for unit tests to launch configuration

8 years ago#5297 Make result, feedback objects in remoting monitor serializable, Update test...
Cherian Mathew [Thu, 29 Oct 2015 11:09:49 +0000 (12:09 +0100)]
#5297 Make result, feedback objects in remoting monitor serializable, Update test service with monitor feedback

8 years agoFix NPE in test
Patrick Plitzner [Thu, 29 Oct 2015 11:59:45 +0000 (12:59 +0100)]
Fix NPE in test

8 years agoReturn correct match strategy #5337
Patrick Plitzner [Wed, 28 Oct 2015 16:07:24 +0000 (17:07 +0100)]
Return correct match strategy #5337

8 years agoFix typo
Patrick Plitzner [Wed, 28 Oct 2015 07:09:21 +0000 (08:09 +0100)]
Fix typo

8 years agoAdd amplificatiion ressult to updated objects when deleting a single
Patrick Plitzner [Tue, 27 Oct 2015 17:23:29 +0000 (18:23 +0100)]
Add amplificatiion ressult to updated objects when deleting a single
read

8 years agoMerge branch 'ticket-5297' into develop
Cherian Mathew [Wed, 28 Oct 2015 14:22:00 +0000 (15:22 +0100)]
Merge branch 'ticket-5297' into develop

8 years ago#5297 Add cancel and waitForFeedback functionality
Cherian Mathew [Wed, 28 Oct 2015 12:24:29 +0000 (13:24 +0100)]
#5297 Add cancel and waitForFeedback functionality

Correct work units

8 years agoFix moving of derivatives with null parent (+test)
Patrick Plitzner [Wed, 28 Oct 2015 10:53:15 +0000 (11:53 +0100)]
Fix moving of derivatives with null parent (+test)

8 years agofix #5104 and #5328
Katja Luther [Wed, 28 Oct 2015 08:35:11 +0000 (09:35 +0100)]
fix #5104 and #5328

8 years ago#5297 Refactor ProgressMonitorController, Add Remoting Progress monitor
Cherian Mathew [Wed, 14 Oct 2015 16:11:36 +0000 (18:11 +0200)]
#5297 Refactor ProgressMonitorController, Add Remoting Progress monitor

#5297 Add progress monitor service, Add test services

#5297 Add monit import method

#5297 Update no. of work units

#5297 Add new thread class for remoting monitors

#5297 Add owner field to monitor thread and user checks in service

#5297 Add javadoc

8 years agoAllow null for parent when moving derivatives
Patrick Plitzner [Tue, 27 Oct 2015 14:08:47 +0000 (15:08 +0100)]
Allow null for parent when moving derivatives

8 years ago#5349 Add http invoker service config files to cdmlib-ext (for editgeo service) and...
Cherian Mathew [Mon, 26 Oct 2015 17:14:41 +0000 (18:14 +0100)]
#5349 Add http invoker service config files to cdmlib-ext (for editgeo service) and cdmlib-io (currenlty empty)

8 years ago#5350 : Add getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification method with...
Cherian Mathew [Mon, 26 Oct 2015 14:58:22 +0000 (15:58 +0100)]
#5350 : Add getTaxonNodeUuidAndTitleCacheOfAcceptedTaxaByClassification  method with uuid as argument

8 years agoMinor cleanup
Andreas Müller [Mon, 26 Oct 2015 14:07:42 +0000 (15:07 +0100)]
Minor cleanup

8 years agoFix NPE in ABCD import collection matching
Patrick Plitzner [Mon, 26 Oct 2015 13:20:54 +0000 (14:20 +0100)]
Fix NPE in ABCD import collection matching

 - also added for-loop break

8 years agoAdd stack trace to import report
Patrick Plitzner [Mon, 26 Oct 2015 12:36:06 +0000 (13:36 +0100)]
Add stack trace to import report

8 years agoRevert throwing of exception for invalid property path #5077
Andreas Müller [Fri, 23 Oct 2015 08:20:50 +0000 (10:20 +0200)]
Revert throwing of exception for invalid property path #5077

8 years agoFix test in dataportal with strict bean initalization #5077
Andreas Müller [Thu, 22 Oct 2015 15:02:14 +0000 (17:02 +0200)]
Fix test in dataportal with strict bean initalization #5077

8 years agoAdd test to ensure bean initialization works on hibernate proxies #5077
Andreas Müller [Thu, 22 Oct 2015 13:55:33 +0000 (15:55 +0200)]
Add test to ensure bean initialization works on hibernate proxies #5077

8 years agoFix property path in CsvNameExport #5344
Andreas Müller [Thu, 22 Oct 2015 13:53:45 +0000 (15:53 +0200)]
Fix property path in CsvNameExport  #5344

8 years agofix #5330
Katja Luther [Thu, 22 Oct 2015 11:13:03 +0000 (13:13 +0200)]
fix  #5330

8 years agoRevert "minor"
Katja Luther [Thu, 22 Oct 2015 10:33:12 +0000 (12:33 +0200)]
Revert "minor"

This reverts commit 64367d007ba404e037ccc2b6794b46c4f1f321bc.

8 years agominor
Katja Luther [Thu, 22 Oct 2015 10:21:32 +0000 (12:21 +0200)]
minor

8 years agofix csv export
Katja Luther [Thu, 22 Oct 2015 09:53:45 +0000 (11:53 +0200)]
fix csv export

8 years agoFix AdvancedBeanInitializer for envers collections/maps #5077
Andreas Müller [Wed, 21 Oct 2015 15:36:40 +0000 (17:36 +0200)]
Fix AdvancedBeanInitializer for envers collections/maps  #5077

8 years agominor
Andreas Müller [Wed, 21 Oct 2015 13:30:45 +0000 (15:30 +0200)]
minor

8 years agoThrow exceptions in AdvancedBeanInitializer instead of logging only
Andreas Müller [Wed, 21 Oct 2015 12:57:33 +0000 (14:57 +0200)]
Throw exceptions in AdvancedBeanInitializer instead of logging only
#5077

8 years agoAdd some more BeanUtil test to other classes #5307
Andreas Müller [Wed, 21 Oct 2015 12:41:48 +0000 (14:41 +0200)]
Add some more BeanUtil test to other classes  #5307

8 years agoFix bean read/write inconsistency in Taxon and TaxonBase #5307
Andreas Müller [Wed, 21 Oct 2015 12:15:10 +0000 (14:15 +0200)]
Fix bean read/write inconsistency in Taxon and TaxonBase #5307

8 years agominor
Katja Luther [Wed, 21 Oct 2015 07:42:38 +0000 (09:42 +0200)]
minor

8 years agoAdd os dependent file separator
Cherian Mathew [Tue, 20 Oct 2015 13:36:57 +0000 (15:36 +0200)]
Add os dependent file separator

8 years agoRevert back early commit since it breaks jetty tests
Cherian Mathew [Tue, 20 Oct 2015 13:13:14 +0000 (15:13 +0200)]
Revert back early commit since it breaks jetty tests

8 years agofix the pom of remote-webapp for windows
Katja Luther [Tue, 20 Oct 2015 12:05:13 +0000 (14:05 +0200)]
fix the pom of remote-webapp for windows

8 years ago#5335 Add get language using label to service
Cherian Mathew [Mon, 19 Oct 2015 13:30:41 +0000 (15:30 +0200)]
#5335 Add get language using label to service

8 years agofix #5179 and adapting the tests because the classification argument is needed now
Katja Luther [Mon, 19 Oct 2015 11:15:41 +0000 (13:15 +0200)]
fix #5179 and adapting the tests because the classification argument is needed now

8 years agofix delete of specimen with specimenDescriptions
Katja Luther [Thu, 15 Oct 2015 09:12:54 +0000 (11:12 +0200)]
fix delete of specimen with specimenDescriptions

8 years agofix move taxon node in natural order
Katja Luther [Thu, 15 Oct 2015 09:11:38 +0000 (11:11 +0200)]
fix move taxon node in natural order

8 years ago#5066 Remove unnecessary merge listener
Cherian Mathew [Wed, 14 Oct 2015 16:28:35 +0000 (18:28 +0200)]
#5066 Remove unnecessary merge listener

8 years agoRevert handling treeindex in PreInsert listener #5066.
Andreas Müller [Wed, 14 Oct 2015 14:44:13 +0000 (16:44 +0200)]
Revert handling treeindex in PreInsert listener #5066.

Treeindex creation works fine until now so we keep it where it is.

8 years agoRename CdmPreDataChangeObservableListener to CdmPreDataChangeListener
Andreas Müller [Wed, 14 Oct 2015 14:33:30 +0000 (16:33 +0200)]
Rename CdmPreDataChangeObservableListener to CdmPreDataChangeListener

8 years agoCleanup IVocService
Andreas Müller [Wed, 14 Oct 2015 14:23:51 +0000 (16:23 +0200)]
Cleanup IVocService

8 years agocleanup
Andreas Müller [Wed, 14 Oct 2015 14:21:52 +0000 (16:21 +0200)]
cleanup

8 years ago#5268 Add convert methods which take uuid as input
Cherian Mathew [Wed, 14 Oct 2015 08:48:50 +0000 (10:48 +0200)]
#5268 Add convert methods which take uuid as input

8 years agofixing getUUIDAndTitleCache for Classification and excluding taxa
Katja Luther [Tue, 13 Oct 2015 10:44:31 +0000 (12:44 +0200)]
fixing getUUIDAndTitleCache for Classification and excluding taxa

8 years agoFully remove old vocabulary.byClass methods #3843
Andreas Müller [Mon, 12 Oct 2015 13:11:31 +0000 (15:11 +0200)]
Fully remove old vocabulary.byClass methods  #3843

8 years agoaccept the change from a number to null in TimePeriod fields #5319
Katja Luther [Mon, 12 Oct 2015 11:16:51 +0000 (13:16 +0200)]
accept the change from a number to null in TimePeriod fields #5319

8 years agoRemove listEmpty method from TermVocabularyDao #3843
Andreas Müller [Mon, 12 Oct 2015 10:08:36 +0000 (12:08 +0200)]
Remove listEmpty method from TermVocabularyDao #3843

8 years agoAdd vocabulary list method by term types #3843
Andreas Müller [Mon, 12 Oct 2015 09:55:41 +0000 (11:55 +0200)]
Add vocabulary list method by term types #3843

8 years agominor
Katja Luther [Mon, 12 Oct 2015 07:15:23 +0000 (09:15 +0200)]
minor

8 years agominor
U-BGBM\k.luther [Tue, 6 Oct 2015 07:48:38 +0000 (09:48 +0200)]
minor

8 years agomove description fix
U-BGBM\k.luther [Mon, 5 Oct 2015 07:44:34 +0000 (09:44 +0200)]
move description fix